Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr01

Orthogroup ID

OG0006436

Physical Location & Seq

Genomic Coordinates Reverse (-)

20914400 .. 20916246

Gene Structure 1847 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD01G1094300.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1188 bp

ATGGTTGCTCGGTTCCATGTCAAAAGAAATCTCAGGATGTGTCATACATTGCAAGGACGACGACAGATGTGGCTCGACCTGCAAGAGAGGTTTTCTCATGTGAACACAGTCCAACTGTTCCACATAGAAAACGAAATCCATAATTGTGTGCAAAGCAACATGACAGTAAGCTCTTATTTCACTAAGCTTAAGAGCCTTTGGGACAGACGTGATGCCTTGTGTTCGATCCCGGCATGCCATTGTGAGACATGGAAAGAGATAATATCGTACGTCGAGACTCAGAAAACAATGAAGTTTCTTATGGGTTTAAATGACTCATATGCTACGGTTCGTGGTAACACTCTTTTGCTGGAACCATTGCCAATTGTTAACAAGGCTTATGCACTTGTTCTTTGCCATGAGAAACAAGTTGAAGTTTCAAATGGAAAGAGCAGCATCGCGCAACCAGAAGCTACCGTGTTTGCTGACCTATGCTTGGGGAAGATGATTGGGATGGGAATTGAACGGGAGGGACTTTACTATCTTGACCCACCAAGGAAGGGAACCTATAATACCGTAACCATCATGAGTTCTATCTTTTGGCACCAACGCCTTGGGCACCCATCACATAAAGTGTCCATGTTATTTCCCTTTTTGCACAATAAACCTTGTGATTCAAATAAATGTTTCATTTGCCCATTGGCTAAACAAACAAGATCATCTTTTCCATTGAGTTCTATATCTACTAAGTCATGTTTTGAATTAATACATGTTGACATTTGGGGTGGTTATCAAGTTGCTTCCATTTTAGGTGCCAAATATTTTCTCACCATTGTAGATGATCACACTAGGTGCACATGGGTTTATTTGATGAAACACAAATCTGACACACAAGATCTCCTTGTTCAATTTATTCACATGATCGAAAATCAATTCAACACTAAAGTCAAAGTGGTTCGAAGTGACAATGGTCCCGAGTTCAAACTTGACACATTCTATAAGCTCAAAGATATTCTTCACCAAACTAGTTGCATCAACACACCACAACAAAATGGTGTTGCTGTACGCAAACATATGTACTTGTTAAATATCGCTCAAGCTCAAGCCCTACTTTTCCAAGCCAACCTTCCTAAACGTTTTTGGGGGGACGCCATTCTTACTTCTACCTATCTCATAAATCGTACACCCACACCTCTTCTTCAAGGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RVT_2 Retrotran_gag_2 Retrotran_gag_3 Retrotrans_gag rve

Protein Analysis

396

Amino Acids

45.46

Weight (kDa)

9.12

Isoelectric Point (pI)

48.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
gag_pre-integrs	PF13976	172 - 230	3.5e-07	GAG-pre-integrase domain
rve	PF00665	247 - 340	3.4e-10	Integrase core domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0006436)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G21280
fragaria_vesca	FvH4_3g37931 FvH4_3g37931 FvH4_3g37931
malus_domestica	MD01G1094300.v1.1 MD02G1156200.v1.1 MD10G1309400.v1.1 MD14G1005300.v1.1
pyrus_communis	pycom02g16670 pycom03g10030 pycom04g21390 pycom05g29420 pycom07g08570 pycom08g06430 pycom15g03080 pycom15g21690
rosa_chinensis	RchiOBHm_Chr4g0394011 RchiOBHm_Chr4g0436631
rosa_multiflora	Rmu_sc0002646.1_g000018 Rmu_sc0004135.1_g000007
rosa_roxburghii	Rroxscaffold_2G00099130
rosa_samantha	Rh1AG086000 Rh2BG003200 Rh5DG450100 Rh7AG095400
rosa_wichuraiana	Rw1G012660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	87
AccB1I	GGYRCC	3 cut(s)	582, 597, 791
AccII	CGCG	1 cut(s)	440
AclI	AACGTT	1 cut(s)	1114
AclWI	GGATC	1 cut(s)	220
AcyI	GRCGYC	1 cut(s)	1128
AdeI	CACNNNGTG	1 cut(s)	831
AfaI	GTAC	4 cut(s)	269, 1044, 1058, 1162
AfiI	CCNNNNNNNGG	2 cut(s)	475, 539
AflII	CTTAAG	1 cut(s)	188
AflIII	ACRYGT	1 cut(s)	748
AgsI	TTSAA	9 cut(s)	413, 420, 503, 657, 740, 887, 916, 961, 1181
AhlI	ACTAGT	1 cut(s)	1004
AjiI	CACGTC	1 cut(s)	209
AjuI	GAANNNNNNNTTGG	2 cut(s)	1089, 1121
AluBI	AGCT	5 cut(s)	171, 187, 452, 982, 1079
AluI	AGCT	5 cut(s)	171, 187, 452, 982, 1079
Alw21I	GWGCWC	1 cut(s)	836
Alw26I	GTCTC	2 cut(s)	239, 269
Alw44I	GTGCAC	1 cut(s)	832
AlwI	GGATC	1 cut(s)	220
Ama87I	CYCGRG	1 cut(s)	953
ApaLI	GTGCAC	1 cut(s)	832
ApeKI	GCWGC	1 cut(s)	432
AseI	ATTAAT	1 cut(s)	743
AspLEI	GCGC	1 cut(s)	442
AspS9I	GGNCC	1 cut(s)	950
AsuC2I	CCSGG	1 cut(s)	230
AsuHPI	GGTGA	2 cut(s)	799, 989
AsuII	TTCGAA	1 cut(s)	937
AvaI	CYCGRG	1 cut(s)	953
AvaII	GGWCC	1 cut(s)	950
BaeGI	GKGCMC	2 cut(s)	600, 836
BanI	GGYRCC	3 cut(s)	582, 597, 791
Bbv12I	GWGCWC	1 cut(s)	836
BbvI	GCAGC	1 cut(s)	444
BccI	CCATC	3 cut(s)	487, 569, 610
BclI	TGATCA	1 cut(s)	820
BcnI	CCSGG	1 cut(s)	230
BcoDI	GTCTC	2 cut(s)	239, 269
BcuI	ACTAGT	1 cut(s)	1004
BfaI	CTAG	2 cut(s)	828, 1005
BfrI	CTTAAG	1 cut(s)	188
BfuAI	ACCTGC	1 cut(s)	87
BglII	AGATCT	1 cut(s)	874
BisI	GCNGC	1 cut(s)	433
BlsI	GCNGC	1 cut(s)	434
Bme1390I	CCNGG	1 cut(s)	230
Bme18I	GGWCC	1 cut(s)	950
BmeT110I	CYCGRG	1 cut(s)	953
BmgBI	CACGTC	1 cut(s)	209
BmgT120I	GGNCC	1 cut(s)	950
BmiI	GGNNCC	7 cut(s)	14, 354, 544, 584, 599, 793, 952
BmrFI	CCNGG	1 cut(s)	230
BmsI	GCATC	3 cut(s)	202, 444, 1020
BoxI	GACNNNNGTC	1 cut(s)	948
BplI	GAGNNNNNCTC	2 cut(s)	79, 111
Bpu14I	TTCGAA	1 cut(s)	937
BpuEI	CTTGAG	2 cut(s)	1059, 1065
BpuMI	CCSGG	1 cut(s)	230
BsaHI	GRCGYC	1 cut(s)	1128
BsaJI	CCNNGG	2 cut(s)	533, 592
BsaXI	ACNNNNNCTCC	2 cut(s)	861, 891
Bsc4I	CCNNNNNNNGG	2 cut(s)	475, 539
Bse3DI	GCAATG	2 cut(s)	47, 356
BseDI	CCNNGG	2 cut(s)	533, 592
BseGI	GGATG	2 cut(s)	42, 498
BseLI	CCNNNNNNNGG	2 cut(s)	475, 539
BseMI	GCAATG	2 cut(s)	47, 356
BseMII	CTCAG	2 cut(s)	46, 293
BseSI	GKGCMC	2 cut(s)	600, 836
BseXI	GCAGC	1 cut(s)	444
Bsh1236I	CGCG	1 cut(s)	440
BshNI	GGYRCC	3 cut(s)	582, 597, 791
BsiHKAI	GWGCWC	1 cut(s)	836
BsiHKCI	CYCGRG	1 cut(s)	953
BsiSI	CCGG	1 cut(s)	230
BsiWI	CGTACG	1 cut(s)	267
BslFI	GGGAC	4 cut(s)	215, 525, 936, 1139
BslI	CCNNNNNNNGG	2 cut(s)	475, 539
BsmAI	GTCTC	2 cut(s)	239, 269
BsmFI	GGGAC	4 cut(s)	215, 525, 936, 1139
BsoBI	CYCGRG	1 cut(s)	953
Bsp119I	TTCGAA	1 cut(s)	937
Bsp1286I	GDGCHC	2 cut(s)	600, 836
Bsp143I	GATC	5 cut(s)	225, 695, 820, 874, 900
BspCNI	CTCAG	2 cut(s)	45, 292
BspFNI	CGCG	1 cut(s)	440
BspHI	TCATGA	1 cut(s)	564
BspLI	GGNNCC	7 cut(s)	14, 354, 544, 584, 599, 793, 952
BspMI	ACCTGC	1 cut(s)	87
BspPI	GGATC	1 cut(s)	220
BspT104I	TTCGAA	1 cut(s)	937
BspT107I	GGYRCC	3 cut(s)	582, 597, 791
BspTI	CTTAAG	1 cut(s)	188
BsrDI	GCAATG	2 cut(s)	47, 356
BssECI	CCNNGG	2 cut(s)	533, 592
BssMI	GATC	5 cut(s)	225, 695, 820, 874, 900
BssNI	GRCGYC	1 cut(s)	1128
BssT1I	CCWWGG	2 cut(s)	533, 592
Bst4CI	ACNGT	6 cut(s)	109, 117, 166, 328, 457, 556
Bst6I	CTCTTC	1 cut(s)	1179
BstACI	GRCGYC	1 cut(s)	1128
BstAFI	CTTAAG	1 cut(s)	188
BstBI	TTCGAA	1 cut(s)	937
BstC8I	GCNNGC	1 cut(s)	235
BstDEI	CTNAG	4 cut(s)	32, 183, 279, 726
BstF5I	GGATG	2 cut(s)	42, 498
BstFNI	CGCG	1 cut(s)	440
BstHHI	GCGC	1 cut(s)	442
BstKTI	GATC	5 cut(s)	228, 698, 823, 877, 903
BstMAI	GTCTC	2 cut(s)	239, 269
BstMBI	GATC	5 cut(s)	225, 695, 820, 874, 900
BstMWI	GCNNNNNNNGC	1 cut(s)	79
BstNSI	RCATGY	2 cut(s)	237, 752
BstPAI	GACNNNNGTC	1 cut(s)	948
BstSCI	CCNGG	1 cut(s)	228
BstSLI	GKGCMC	2 cut(s)	600, 836
BstUI	CGCG	1 cut(s)	440
BstV1I	GCAGC	1 cut(s)	444
BstX2I	RGATCY	1 cut(s)	874
BstXI	CCANNNNNNTGG	1 cut(s)	593
BstYI	RGATCY	1 cut(s)	874
BtgZI	GCGATG	1 cut(s)	421
BtrI	CACGTC	1 cut(s)	209
BtsCI	GGATG	2 cut(s)	42, 498
BveI	ACCTGC	1 cut(s)	87
Cac8I	GCNNGC	1 cut(s)	235
CciI	TCATGA	1 cut(s)	564
CfoI	GCGC	1 cut(s)	442
Cfr13I	GGNCC	1 cut(s)	950
CseI	GACGC	1 cut(s)	1136
Csp6I	GTAC	4 cut(s)	268, 1043, 1057, 1161
CviQI	GTAC	4 cut(s)	268, 1043, 1057, 1161
DdeI	CTNAG	4 cut(s)	32, 183, 279, 726
DpnI	GATC	5 cut(s)	227, 697, 822, 876, 902
DpnII	GATC	5 cut(s)	225, 695, 820, 874, 900
DraI	TTTAAA	1 cut(s)	309
DraIII	CACNNNGTG	1 cut(s)	831
Eam1104I	CTCTTC	1 cut(s)	1179
EarI	CTCTTC	1 cut(s)	1179
Eco130I	CCWWGG	2 cut(s)	533, 592
Eco47I	GGWCC	1 cut(s)	950
Eco88I	CYCGRG	1 cut(s)	953
EcoT14I	CCWWGG	2 cut(s)	533, 592
ErhI	CCWWGG	2 cut(s)	533, 592
FaqI	GGGAC	4 cut(s)	215, 525, 936, 1139
FauNDI	CATATG	2 cut(s)	319, 1053
FbaI	TGATCA	1 cut(s)	820
Fnu4HI	GCNGC	1 cut(s)	433
FokI	GGATG	2 cut(s)	49, 505
Fsp4HI	GCNGC	1 cut(s)	433
FspBI	CTAG	2 cut(s)	828, 1005
GlaI	GCGC	1 cut(s)	441
GluI	GCNGC	1 cut(s)	433
HapII	CCGG	1 cut(s)	230
HgaI	GACGC	1 cut(s)	1136
HhaI	GCGC	1 cut(s)	442
Hin1I	GRCGYC	1 cut(s)	1128
Hin6I	GCGC	1 cut(s)	440
HinP1I	GCGC	1 cut(s)	440
HincII	GTYRAC	2 cut(s)	370, 754
HindII	GTYRAC	2 cut(s)	370, 754
HindIII	AAGCTT	1 cut(s)	185
HinfI	GANTC	3 cut(s)	277, 314, 653
HpaI	GTTAAC	1 cut(s)	370
HpaII	CCGG	1 cut(s)	230
HphI	GGTGA	2 cut(s)	799, 989
Hpy166II	GTNNAC	5 cut(s)	103, 370, 754, 834, 1163
Hpy188I	TCNGA	2 cut(s)	282, 865
Hpy188III	TCNNGA	5 cut(s)	34, 274, 524, 565, 953
Hpy8I	GTNNAC	5 cut(s)	103, 370, 754, 834, 1163
Hpy99I	CGWCG	2 cut(s)	63, 275
HpyAV	CCTTC	2 cut(s)	532, 1115
HpyCH4III	ACNGT	6 cut(s)	109, 117, 166, 328, 457, 556
HpyCH4IV	ACGT	3 cut(s)	208, 270, 1114
HpyCH4V	TGCA	7 cut(s)	52, 82, 151, 383, 637, 834, 1011
HpyF10VI	GCNNNNNNNGC	1 cut(s)	79
HpyF3I	CTNAG	4 cut(s)	32, 183, 279, 726
HpySE526I	ACGT	3 cut(s)	208, 270, 1114
Hsp92I	GRCGYC	1 cut(s)	1128
HspAI	GCGC	1 cut(s)	440
Ksp22I	TGATCA	1 cut(s)	820
KspAI	GTTAAC	1 cut(s)	370
Kzo9I	GATC	5 cut(s)	225, 695, 820, 874, 900
LpnPI	CCDG	5 cut(s)	19, 92, 243, 335, 459
Lsp1109I	GCAGC	1 cut(s)	444
LweI	GCATC	3 cut(s)	202, 444, 1020
MaeI	CTAG	2 cut(s)	828, 1005
MaeII	ACGT	3 cut(s)	208, 270, 1114
MaeIII	GTNAC	3 cut(s)	335, 556, 941
MalI	GATC	5 cut(s)	227, 697, 822, 876, 902
MboI	GATC	5 cut(s)	225, 695, 820, 874, 900
MboII	GAAGA	4 cut(s)	493, 986, 1166, 1169
MfeI	CAATTG	1 cut(s)	363
MflI	RGATCY	1 cut(s)	874
MhlI	GDGCHC	2 cut(s)	600, 836
MluCI	AATT	6 cut(s)	142, 363, 498, 740, 887, 911
MlyI	GAGTC	2 cut(s)	271, 308
MmeI	TCCRAC	1 cut(s)	136
MnlI	CCTC	3 cut(s)	81, 502, 1182
MseI	TTAA	5 cut(s)	189, 308, 369, 743, 1064
MslI	CAYNNNNRTG	1 cut(s)	144
MspCI	CTTAAG	1 cut(s)	188
MspI	CCGG	1 cut(s)	230
MspR9I	CCNGG	1 cut(s)	230
MunI	CAATTG	1 cut(s)	363
MvnI	CGCG	1 cut(s)	440
MwoI	GCNNNNNNNGC	1 cut(s)	79
NciI	CCSGG	1 cut(s)	230
NdeI	CATATG	2 cut(s)	319, 1053
NdeII	GATC	5 cut(s)	225, 695, 820, 874, 900
NlaIV	GGNNCC	7 cut(s)	14, 354, 544, 584, 599, 793, 952
NmuCI	GTSAC	1 cut(s)	941
NspI	RCATGY	2 cut(s)	237, 752
NspV	TTCGAA	1 cut(s)	937
PaeI	GCATGC	1 cut(s)	237
PagI	TCATGA	1 cut(s)	564
PciI	ACATGT	1 cut(s)	748
PfeI	GAWTC	1 cut(s)	653
Pfl23II	CGTACG	1 cut(s)	267
PkrI	GCNGC	1 cut(s)	434
PleI	GAGTC	2 cut(s)	271, 308
PpsI	GAGTC	2 cut(s)	271, 308
PscI	ACATGT	1 cut(s)	748
PshAI	GACNNNNGTC	1 cut(s)	948
PshBI	ATTAAT	1 cut(s)	743
Psp1406I	AACGTT	1 cut(s)	1114
PspLI	CGTACG	1 cut(s)	267
PspN4I	GGNNCC	7 cut(s)	14, 354, 544, 584, 599, 793, 952
PspPI	GGNCC	1 cut(s)	950
PsrI	GAACNNNNNNTAC	2 cut(s)	535, 567
PsuI	RGATCY	1 cut(s)	874
RsaI	GTAC	4 cut(s)	269, 1044, 1058, 1162
RsaNI	GTAC	4 cut(s)	268, 1043, 1057, 1161
RseI	CAYNNNNRTG	1 cut(s)	144
SaqAI	TTAA	5 cut(s)	189, 308, 369, 743, 1064
SatI	GCNGC	1 cut(s)	433
Sau3AI	GATC	5 cut(s)	225, 695, 820, 874, 900
Sau96I	GGNCC	1 cut(s)	950
SchI	GAGTC	2 cut(s)	271, 308
ScrFI	CCNGG	1 cut(s)	230
SduI	GDGCHC	2 cut(s)	600, 836
SfaNI	GCATC	3 cut(s)	202, 444, 1020
SfuI	TTCGAA	1 cut(s)	937
SinI	GGWCC	1 cut(s)	950
SmiMI	CAYNNNNRTG	1 cut(s)	144
SmlI	CTYRAG	3 cut(s)	188, 1074, 1080
SmoI	CTYRAG	3 cut(s)	188, 1074, 1080
SpeI	ACTAGT	1 cut(s)	1004
SphI	GCATGC	1 cut(s)	237
Sse9I	AATT	6 cut(s)	142, 363, 498, 740, 887, 911
SspI	AATATT	1 cut(s)	800
SspMI	CTAG	2 cut(s)	828, 1005
StyD4I	CCNGG	1 cut(s)	228
StyI	CCWWGG	2 cut(s)	533, 592
TaaI	ACNGT	6 cut(s)	109, 117, 166, 328, 457, 556
TaiI	ACGT	3 cut(s)	211, 273, 1117
TaqI	TCGA	5 cut(s)	75, 224, 273, 903, 937
TasI	AATT	6 cut(s)	142, 363, 498, 740, 887, 911
TatI	WGTACW	1 cut(s)	1056
TfiI	GAWTC	1 cut(s)	653
Tru1I	TTAA	5 cut(s)	189, 308, 369, 743, 1064
Tru9I	TTAA	5 cut(s)	189, 308, 369, 743, 1064
TseFI	GTSAC	1 cut(s)	941
TseI	GCWGC	1 cut(s)	432
Tsp45I	GTSAC	1 cut(s)	941
TspDTI	ATGAA	3 cut(s)	305, 658, 866
Vha464I	CTTAAG	1 cut(s)	188
VneI	GTGCAC	1 cut(s)	832
VpaK11BI	GGWCC	1 cut(s)	950
VspI	ATTAAT	1 cut(s)	743
XceI	RCATGY	2 cut(s)	237, 752
XspI	CTAG	2 cut(s)	828, 1005

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.